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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttggaatccctttgatattggcattcatcttttctttgttctgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAGGTTAGCAAATGAG

Basic information

species Zea mays
transcript GRMZM5G820727_T07
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G820727_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g34750.1 (Oryza sativa), 3'ss of exon 2
ttttttggaat-ccctttgatattggcattcatcttttctttgttctgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAGGTTAGCAAATGAG
| |  ||  |   | |||   |||     ||   || |  |||||          |    ||||| |||||  ||||||||| |   |  ||   |||||||||| |||||||| || || || || |||||||| || |||||  | |||||||||||||| |||||||||
tatgatgatacatcatttatcattccttctctagttatggttgtttcagtcactatcttgttttcctgtaataagatttagattgc-cacttcgcatgcagGAAGCCAGTGCAATTCGGCTACACAAACATTTGACGGAGTTGACCTGATGGGTGAAAGGTTGGCAAATGAG

upper sequence: GRMZM5G820727_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G25770.1 (Arabidopsis thaliana), 3'ss of exon 2
ttttttggaatccctttgatattggcattcatcttttctttgttctgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAGGTTAGCAAATGAG
   |  |   | | |    ||| |  |||    ||||  ||  ||||||||| |    ||| | |  |    |   | | | |  |      | | ||||| ||  || | ||   ||| ||   |||||||||||||||||||  ||||||||||||| |||| ||||||
--gtgcgtgtttcttgacctatagatattgtggttttgattactctgtaattttatgatttgtttgattttgatgatgaaattgga------tgaagcagGTAGCGAGAGTAATAGTGCAACGTTGACATTTGATGGTGTTGATAAAATGGGTGAAAGGCTAGCTAATGAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|71772904|gb|DR970827.1|DR970827
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
EST: gi|78113514|gb|DV531905.1|DV531905
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
EST: gi|148942263|gb|EC887279.2|EC887279
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGT
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGT
EST: gi|76020655|gb|DT947825.1|DT947825
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
EST: gi|78090975|gb|DV519349.1|DV519349
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
EST: gi|78082075|gb|DV510487.1|DV510487
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
EST: gi|78106692|gb|DV525110.1|DV525110
EST:     CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACC                         GAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG
genomic: CGCGGCAGAGCAGTTTGTGAGGCGGATGCCGGACAAGGTGATCGTGCACCgtgagttacc ... ttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaattcttgcctttttcttgtaaatagatttagactttaccttttttatgcagGAAGTCAGTGCAACTCTGCCACTCAGACATTTGATGGTGTTGATTTAATGGGTGAAAGGTTAGCAAATGAG
                                    ctttaccttttttat  CT-rich tract
             tttttcttgtaaatag  TA-rich tract